AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038370

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038370 MtrunA17_Chr7g0245871 96.957 230 6 1 8 236 15 244 1.05e-163 452
MsaG038370 MtrunA17_Chr8g0351701 56.744 215 87 5 20 233 23 232 1.66e-75 228
MsaG038370 MtrunA17_Chr8g0351721 51.485 202 80 5 3 191 1 197 2.05e-59 186
MsaG038370 MtrunA17_Chr7g0261031 71.154 104 30 0 17 120 5 108 4.48e-52 168
MsaG038370 MtrunA17_Chr1g0184271 60.938 128 42 2 20 141 12 137 6.28e-52 168
MsaG038370 MtrunA17_Chr7g0260971 65.179 112 39 0 10 121 4 115 6.24e-49 160
MsaG038370 MtrunA17_Chr6g0460951 59.350 123 44 1 19 135 39 161 6.39e-47 155
MsaG038370 MtrunA17_Chr1g0184281 63.889 108 39 0 7 114 2 109 3.66e-45 150
MsaG038370 MtrunA17_Chr5g0438091 51.724 145 63 2 13 157 32 169 1.35e-43 145
MsaG038370 MtrunA17_Chr5g0435641 63.725 102 37 0 18 119 5 106 5.44e-43 144
MsaG038370 MtrunA17_Chr7g0245861 68.367 98 29 2 12 107 4 101 8.70e-43 141
MsaG038370 MtrunA17_Chr3g0129071 57.627 118 49 1 13 130 40 156 1.48e-39 136
MsaG038370 MtrunA17_Chr5g0437571 48.855 131 66 1 18 148 4 133 4.23e-39 133
MsaG038370 MtrunA17_Chr4g0058651 53.226 124 56 2 18 141 9 130 1.03e-38 132
MsaG038370 MtrunA17_Chr3g0114061 56.481 108 46 1 14 121 2 108 2.01e-38 131
MsaG038370 MtrunA17_Chr2g0311601 51.240 121 54 2 10 128 3 120 3.43e-37 128
MsaG038370 MtrunA17_Chr7g0227511 60.606 99 38 1 17 115 8 105 4.25e-37 128
MsaG038370 MtrunA17_Chr4g0043421 54.867 113 44 3 12 120 5 114 7.47e-37 127
MsaG038370 MtrunA17_Chr5g0402611 58.491 106 43 1 16 121 4 108 2.67e-36 130
MsaG038370 MtrunA17_Chr3g0106101 51.724 116 55 1 15 130 2 116 2.81e-36 126
MsaG038370 MtrunA17_Chr3g0117121 60.000 100 39 1 16 115 6 104 3.26e-36 126
MsaG038370 MtrunA17_Chr6g0449641 58.586 99 40 1 17 115 6 103 7.76e-36 124
MsaG038370 MtrunA17_Chr5g0437401 50.000 110 54 1 12 121 3 111 9.27e-36 125
MsaG038370 MtrunA17_Chr3g0113891 52.778 108 50 1 8 115 2 108 2.80e-35 124
MsaG038370 MtrunA17_Chr3g0115431 52.941 119 54 2 17 135 6 122 3.83e-35 124
MsaG038370 MtrunA17_Chr3g0097221 54.386 114 51 1 16 129 3 115 1.19e-34 125
MsaG038370 MtrunA17_Chr6g0449651 56.436 101 43 1 15 115 62 161 4.49e-34 121
MsaG038370 MtrunA17_Chr5g0432451 62.136 103 38 1 19 121 42 143 3.11e-33 120
MsaG038370 MtrunA17_Chr4g0030001 48.649 111 55 2 19 128 23 132 6.07e-31 112
MsaG038370 MtrunA17_Chr6g0460941 56.818 88 38 0 20 107 7 94 3.78e-30 107
MsaG038370 MtrunA17_Chr1g0200201 49.505 101 50 1 21 121 73 172 1.64e-29 110
MsaG038370 MtrunA17_Chr8g0353981 61.176 85 32 1 16 100 3 86 3.08e-28 107
MsaG038370 MtrunA17_Chr5g0444351 41.270 126 66 2 21 139 6 130 4.81e-26 99.0
MsaG038370 MtrunA17_Chr7g0225111 42.342 111 63 1 19 129 4 113 1.31e-24 94.4
MsaG038370 MtrunA17_Chr8g0374601 43.137 102 57 1 20 121 26 126 5.80e-23 94.4
MsaG038370 MtrunA17_Chr8g0374591 44.118 102 56 1 20 121 8 108 5.56e-21 85.1
MsaG038370 MtrunA17_Chr4g0040831 39.640 111 64 2 21 131 16 123 2.26e-19 82.8
MsaG038370 MtrunA17_Chr4g0059901 39.000 100 60 1 15 114 5 103 2.56e-19 84.0
MsaG038370 MtrunA17_Chr8g0374581 40.777 103 59 2 20 121 8 109 2.18e-18 80.9
MsaG038370 MtrunA17_Chr6g0452691 35.417 144 81 4 16 149 5 146 1.08e-17 78.2
MsaG038370 MtrunA17_Chr6g0452671 34.653 101 65 1 15 115 6 105 3.95e-16 74.3
MsaG038370 MtrunA17_Chr8g0342351 32.673 101 67 1 21 121 13 112 9.87e-16 74.3
MsaG038370 MtrunA17_Chr6g0452661 37.374 99 60 2 21 118 10 107 5.80e-15 72.0
MsaG038370 MtrunA17_Chr2g0330201 34.653 101 65 1 21 121 20 119 1.28e-14 71.6
MsaG038370 MtrunA17_Chr4g0055441 35.000 100 63 2 21 119 3 101 7.71e-13 64.3
MsaG038370 MtrunA17_Chr2g0326041 54.167 48 21 1 19 66 32 78 1.59e-12 61.6
MsaG038370 MtrunA17_Chr2g0326051 46.032 63 34 0 66 128 5 67 3.05e-12 62.0
MsaG038370 MtrunA17_Chr5g0439111 28.986 138 89 3 21 150 10 146 8.88e-12 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038370 AT2G45420.1 50.667 225 95 4 23 233 40 262 6.18e-63 197
MsaG038370 AT4G00220.1 49.309 217 95 5 23 233 20 227 8.10e-60 188
MsaG038370 AT4G00210.1 68.939 132 31 2 6 137 2 123 3.13e-58 184
MsaG038370 AT2G45410.1 62.500 120 42 1 23 142 19 135 2.74e-51 165
MsaG038370 AT3G03760.1 72.642 106 28 1 19 123 50 155 4.56e-49 162
MsaG038370 AT3G58190.1 70.707 99 29 0 20 118 11 109 4.66e-48 158
MsaG038370 AT2G42430.1 60.504 119 44 1 3 121 1 116 2.45e-47 157
MsaG038370 AT5G06080.1 54.015 137 56 1 15 144 2 138 3.10e-46 152
MsaG038370 AT2G42440.1 65.686 102 35 0 17 118 4 105 1.05e-45 152
MsaG038370 AT2G31310.1 63.810 105 38 0 15 119 2 106 1.39e-43 145
MsaG038370 AT5G63090.4 55.652 115 50 1 16 130 7 120 3.14e-37 129
MsaG038370 AT5G63090.3 55.652 115 50 1 16 130 7 120 3.14e-37 129
MsaG038370 AT5G63090.2 55.652 115 50 1 16 130 7 120 3.14e-37 129
MsaG038370 AT5G63090.1 55.652 115 50 1 16 130 7 120 3.14e-37 129
MsaG038370 AT2G30340.2 61.165 103 39 1 19 121 52 153 5.55e-37 131
MsaG038370 AT2G30340.1 61.165 103 39 1 19 121 51 152 5.59e-37 131
MsaG038370 AT3G27650.1 60.606 99 38 1 17 115 36 133 7.78e-37 127
MsaG038370 AT2G30130.1 55.455 110 44 2 14 121 2 108 8.27e-36 125
MsaG038370 AT3G11090.1 41.520 171 84 5 12 175 3 164 1.23e-35 124
MsaG038370 AT1G16530.1 44.118 136 74 2 10 144 4 138 2.97e-34 121
MsaG038370 AT5G66870.1 50.365 137 59 3 15 151 2 129 4.33e-34 124
MsaG038370 AT2G40470.2 64.078 103 36 1 19 121 19 120 2.75e-33 119
MsaG038370 AT2G40470.1 64.078 103 36 1 19 121 44 145 3.28e-33 120
MsaG038370 AT1G31320.1 57.143 91 38 1 17 107 10 99 2.69e-32 116
MsaG038370 AT1G07900.1 51.456 103 49 1 19 121 32 133 6.23e-32 115
MsaG038370 AT2G23660.2 50.427 117 56 2 19 135 4 118 9.70e-32 118
MsaG038370 AT2G23660.3 50.427 117 56 2 19 135 4 118 9.70e-32 118
MsaG038370 AT2G23660.1 50.427 117 56 2 19 135 4 118 9.70e-32 118
MsaG038370 AT2G28500.1 51.456 103 49 1 19 121 54 155 5.09e-31 114
MsaG038370 AT3G26660.1 48.515 101 51 1 21 121 6 105 6.68e-30 108
MsaG038370 AT3G26620.1 48.515 101 51 1 21 121 6 105 1.26e-29 107
MsaG038370 AT1G65620.1 59.434 106 42 1 16 121 5 109 1.56e-29 109
MsaG038370 AT1G65620.4 59.434 106 42 1 16 121 5 109 1.56e-29 109
MsaG038370 AT1G65620.3 59.434 106 42 1 16 121 5 109 1.56e-29 109
MsaG038370 AT1G65620.5 59.434 106 42 1 16 121 5 109 1.56e-29 109
MsaG038370 AT1G65620.2 59.434 106 42 1 16 121 5 109 1.56e-29 109
MsaG038370 AT3G50510.1 41.667 120 68 2 19 138 11 128 1.60e-24 96.7
MsaG038370 AT3G50510.2 41.667 120 68 2 19 138 11 128 1.60e-24 96.7
MsaG038370 AT5G35900.1 36.634 101 63 1 21 121 6 105 7.30e-19 82.0
MsaG038370 AT1G72980.1 37.963 108 66 1 15 122 8 114 2.74e-18 80.9
MsaG038370 AT3G47870.1 34.259 108 69 2 14 121 31 136 2.23e-16 77.4
MsaG038370 AT3G13850.1 35.789 95 60 1 21 115 37 130 5.02e-16 75.5
MsaG038370 AT1G06280.1 42.308 78 44 1 21 98 25 101 8.84e-15 70.9

Find 76 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACTGATCATTTAGAAAATT+TGG 0.109915 7:-75721108 None:intergenic
CAGCTGTGCACAAAGTGTTT+GGG 0.287134 7:+75717865 MsaT038370.1:CDS
GACCTTACTCATAGACAAAT+TGG 0.304306 7:+75721038 MsaT038370.1:CDS
GTGGTGGTAGCGGTGCTTGT+TGG 0.310892 7:-75720794 None:intergenic
GCAGCTGTGCACAAAGTGTT+TGG 0.322262 7:+75717864 MsaT038370.1:CDS
TTGAATTAATGTGGCTTTGT+AGG 0.334987 7:-75720761 None:intergenic
AATGTATCCAAACTCCTTCT+TGG 0.335322 7:+75717894 MsaT038370.1:CDS
CAAAGCCACATTAATTCAAC+TGG 0.351989 7:+75720765 MsaT038370.1:CDS
TCCCAGCGGTGGTTGATGTT+GGG 0.361607 7:-75720998 None:intergenic
TGGTGGTAGCGGTGCTTGTT+GGG 0.396654 7:-75720793 None:intergenic
CCATGCTCTGAATCAAAGTA+TGG 0.400865 7:-75717828 None:intergenic
TATCGTTGCCCTTCAGCAAC+AGG 0.412537 7:+75718010 MsaT038370.1:CDS
TGGAATGCCAAGAAGGAGTT+TGG 0.416293 7:-75717901 None:intergenic
AGCGGAAGCGGTGGTGGCGG+CGG 0.416797 7:+75717735 MsaT038370.1:CDS
GGCATGGTTGTGGCGGTGGT+TGG 0.418748 7:-75720864 None:intergenic
GACCGGCATGGTTGTGGCGG+TGG 0.423968 7:-75720868 None:intergenic
ATGGTTGTGGCGGTGGTTGG+TGG 0.442641 7:-75720861 None:intergenic
TCCAACAGTCTTCTCCTTTG+CGG 0.443005 7:+75720833 MsaT038370.1:CDS
AACTCTAGTGGCAGCGGAAG+CGG 0.447701 7:+75717723 MsaT038370.1:CDS
GAAGCAGTGGAAGCCCTTGT+GGG 0.450034 7:+75717757 MsaT038370.1:CDS
GGCAGCGGAAGCGGTGGTGG+CGG 0.454451 7:+75717732 MsaT038370.1:CDS
AGTGGCAGCGGAAGCGGTGG+TGG 0.464681 7:+75717729 MsaT038370.1:CDS
AGGTTGAGAGATCCTATCTA+TGG 0.467327 7:+75717975 MsaT038370.1:CDS
ATAGGTGACCGGCATGGTTG+TGG 0.472293 7:-75720874 None:intergenic
GCCGCAGTCGCCTGTGGTGG+TGG 0.480245 7:-75720810 None:intergenic
TGACCAACACAACCATAGAT+AGG 0.484451 7:-75717987 None:intergenic
GTATTGACGTGGATCAATAC+TGG 0.487488 7:-75720958 None:intergenic
ATCCCAGCGGTGGTTGATGT+TGG 0.489865 7:-75720999 None:intergenic
AGCACCGCTACCACCACCAC+AGG 0.491142 7:+75720800 MsaT038370.1:CDS
ATTAATGTGGCTTTGTAGGT+AGG 0.492254 7:-75720757 None:intergenic
CGAAGCAGATGATGAGGCAT+TGG 0.499845 7:-75721081 None:intergenic
AGCCAATTTGTCTATGAGTA+AGG 0.502031 7:-75721040 None:intergenic
AATAAGTTACCTGTTGCTGA+AGG 0.502270 7:-75718019 None:intergenic
GCCCCAACATCAACCACCGC+TGG 0.504868 7:+75720996 MsaT038370.1:CDS
AGCAGATGATGAGGCATTGG+AGG 0.508438 7:-75721078 None:intergenic
TTTGCTATGAAGCTCAATCA+AGG 0.514259 7:+75717955 MsaT038370.1:CDS
GCATCAAGCCTCCTACTAGC+TGG 0.514810 7:-75717921 None:intergenic
TTGAGGAGGAAGTGTGTGCA+AGG 0.518714 7:+75717792 MsaT038370.1:CDS
CCCAGCGGTGGTTGATGTTG+GGG 0.527927 7:-75720997 None:intergenic
TTGTGGCGGTGGTTGGTGGT+AGG 0.533093 7:-75720857 None:intergenic
GGAAGCAGTGGAAGCCCTTG+TGG 0.533857 7:+75717756 MsaT038370.1:CDS
GTCGCCTGTGGTGGTGGTAG+CGG 0.534456 7:-75720804 None:intergenic
TCCGCAAAGGAGAAGACTGT+TGG 0.538182 7:-75720834 None:intergenic
TTGGCATTCCAGCTAGTAGG+AGG 0.542403 7:+75717913 MsaT038370.1:CDS
TTCTTGGCATTCCAGCTAGT+AGG 0.545620 7:+75717910 MsaT038370.1:CDS
TACTAGCTGGAATGCCAAGA+AGG 0.545685 7:-75717908 None:intergenic
CCATACTTTGATTCAGAGCA+TGG 0.551259 7:+75717828 MsaT038370.1:CDS
CCCCAACATCAACCACCGCT+GGG 0.555064 7:+75720997 MsaT038370.1:CDS
GATCCTATCTATGGTTGTGT+TGG 0.563587 7:+75717984 MsaT038370.1:CDS
TCTAGTGGCAGCGGAAGCGG+TGG 0.570616 7:+75717726 MsaT038370.1:CDS
AACCACCGCCACAACCATGC+CGG 0.571081 7:+75720866 MsaT038370.1:CDS
GATGATGAGGCATTGGAGGA+TGG 0.581068 7:-75721074 None:intergenic
AGTCTAAACTCTAGTGGCAG+CGG 0.581990 7:+75717717 MsaT038370.1:CDS
TTAGCCCAGTTGAATTAATG+TGG 0.586405 7:-75720770 None:intergenic
ATAAGTTACCTGTTGCTGAA+GGG 0.587056 7:-75718018 None:intergenic
GGTGGTGGCGGCGGAAGCAG+TGG 0.590585 7:+75717744 MsaT038370.1:CDS
ACTGGTCCTCTGTTGTTGCA+TGG 0.593904 7:-75720940 None:intergenic
TGTTGTTGCATGGAAAATGA+AGG 0.598299 7:-75720930 None:intergenic
AAGCAGTGGAAGCCCTTGTG+GGG 0.605091 7:+75717758 MsaT038370.1:CDS
GTTGGAGCCGCAGTCGCCTG+TGG 0.606034 7:-75720816 None:intergenic
GGTGACCGGCATGGTTGTGG+CGG 0.607116 7:-75720871 None:intergenic
CACCGCTGGGATTCAATCAG+TGG 0.607722 7:+75721010 MsaT038370.1:CDS
GAGATGAGTCTAAACTCTAG+TGG 0.611359 7:+75717711 None:intergenic
TGAGGAGGAAGTGTGTGCAA+GGG 0.614125 7:+75717793 MsaT038370.1:CDS
AGCTGTGCACAAAGTGTTTG+GGG 0.615090 7:+75717866 MsaT038370.1:CDS
GGAGCCGCAGTCGCCTGTGG+TGG 0.616723 7:-75720813 None:intergenic
GTAGACATATCATAGGTGAC+CGG 0.623164 7:-75720885 None:intergenic
GGTTGGTGGTAGGTCCGCAA+AGG 0.624070 7:-75720847 None:intergenic
ACCACCACCACAGGCGACTG+CGG 0.626087 7:+75720809 MsaT038370.1:CDS
GGAAAACGAAGCAGATGATG+AGG 0.632780 7:-75721087 None:intergenic
AAAACTTGCAAGCCCCACAA+GGG 0.669022 7:-75717770 None:intergenic
AAAGCCACATTAATTCAACT+GGG 0.678701 7:+75720766 MsaT038370.1:CDS
CACTGATTGAATCCCAGCGG+TGG 0.680808 7:-75721009 None:intergenic
CATATCATAGGTGACCGGCA+TGG 0.691704 7:-75720880 None:intergenic
TGAGCAGCTAAGTATTGACG+TGG 0.699058 7:-75720969 None:intergenic
TGCCACTGATTGAATCCCAG+CGG 0.713863 7:-75721012 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 75717714 75721124 75717714 ID=MsaG038370
Chr7 mRNA 75717714 75721124 75717714 ID=MsaT038370.1;Parent=MsaG038370
Chr7 exon 75717714 75718031 75717714 ID=MsaT038370.1.exon1;Parent=MsaT038370.1
Chr7 CDS 75717714 75718031 75717714 ID=cds.MsaT038370.1;Parent=MsaT038370.1
Chr7 exon 75720732 75721124 75720732 ID=MsaT038370.1.exon2;Parent=MsaT038370.1
Chr7 CDS 75720732 75721124 75720732 ID=cds.MsaT038370.1;Parent=MsaT038370.1
Gene Sequence

>MsaT038370.1

ATGAGTCTAAACTCTAGTGGCAGCGGAAGCGGTGGTGGCGGCGGAAGCAGTGGAAGCCCTTGTGGGGCTTGCAAGTTTTTGAGGAGGAAGTGTGTGCAAGGGTGTGTTTTTGCTCCATACTTTGATTCAGAGCATGGTACAACACACTTTGCAGCTGTGCACAAAGTGTTTGGGGCTAGCAATGTATCCAAACTCCTTCTTGGCATTCCAGCTAGTAGGAGGCTTGATGCTGCAGTCTCTCTTTGCTATGAAGCTCAATCAAGGTTGAGAGATCCTATCTATGGTTGTGTTGGTCATATCGTTGCCCTTCAGCAACAGGTGATGAGTTTACAAGCTGAACTCTCCTACCTACAAAGCCACATTAATTCAACTGGGCTAACCCAACAAGCACCGCTACCACCACCACAGGCGACTGCGGCTCCAACAGTCTTCTCCTTTGCGGACCTACCACCAACCACCGCCACAACCATGCCGGTCACCTATGATATGTCTACACTTTTTGACTCAATGGGACAACCTTCATTTTCCATGCAACAACAGAGGACCAGTATTGATCCACGTCAATACTTAGCTGCTCATCATGCCCCAACATCAACCACCGCTGGGATTCAATCAGTGGCATGTGACCTTACTCATAGACAAATTGGCTCTTCATCTGTGCCATCCTCCAATGCCTCATCATCTGCTTCGTTTTCCAAATTTTCTAAATGA
Protein sequence

>MsaT038370.1

MSLNSSGSGSGGGGGSSGSPCGACKFLRRKCVQGCVFAPYFDSEHGTTHFAAVHKVFGASNVSKLLLGIPASRRLDAAVSLCYEAQSRLRDPIYGCVGHIVALQQQVMSLQAELSYLQSHINSTGLTQQAPLPPPQATAAPTVFSFADLPPTTATTMPVTYDMSTLFDSMGQPSFSMQQQRTSIDPRQYLAAHHAPTSTTAGIQSVACDLTHRQIGSSSVPSSNASSSASFSKFSK*